Time-Scaled Stochastic Input to Biochemical Reaction Networks

نویسندگان

  • Rachel L. Thomas
  • Mauro Maggioni
  • Thomas P. Witelski
چکیده

) Time-Scaled Stochastic Input to Biochemical Reaction Networks by Rachel L. Thomas Department of Mathematics Duke University

برای دانلود متن کامل این مقاله و بیش از 32 میلیون مقاله دیگر ابتدا ثبت نام کنید

ثبت نام

اگر عضو سایت هستید لطفا وارد حساب کاربری خود شوید

منابع مشابه

Elimination of Intermediate Species in Multiscale Stochastic Reaction Networks

We study networks of biochemical reactions modelled by continuous-time Markov processes. Such networks typically contain many molecular species and reactions and are hard to study analytically as well as by simulation. Particularly, we are interested in reaction networks with intermediate species such as the substrate-enzyme complex in the Michaelis-Menten mechanism. These species are virtually...

متن کامل

A constant-time kinetic Monte Carlo algorithm for simulation of large biochemical reaction networks.

The time evolution of species concentrations in biochemical reaction networks is often modeled using the stochastic simulation algorithm (SSA) [Gillespie, J. Phys. Chem. 81, 2340 (1977)]. The computational cost of the original SSA scaled linearly with the number of reactions in the network. Gibson and Bruck developed a logarithmic scaling version of the SSA which uses a priority queue or binary...

متن کامل

Numerical modeling for nonlinear biochemical reaction networks

Nowadays, numerical models have great importance in every field of science, especially for solving the nonlinear differential equations, partial differential equations, biochemical reactions, etc. The total time evolution of the reactant concentrations in the basic enzyme-substrate reaction is simulated by the Runge-Kutta of order four (RK4) and by nonstandard finite difference (NSFD) method. A...

متن کامل

Reduced Linear Noise Approximation for Biochemical Reaction Networks with Time-scale Separation : The stochastic tQSSA

Biochemical reaction networks often involve reactions that take place on different time-scales, giving rise to ‘slow’ and ‘fast’ system variables. This property is widely used in the analysis of systems to obtain dynamical models with reduced dimensions. In this paper, we consider stochastic dynamics of biochemical reaction networks modeled using the Linear Noise Approximation (LNA). Under time...

متن کامل

Limitation and averaging for deterministic and stochastic biochemical reaction networks

We discuss model reduction of multiscale networks of biochemical reactions used in systems biology as models for cell physiology and pathology. For linear kinetic models, which appear as ”pseudo-monomolecular” subsystems of the nonlinear reaction networks, we obtain a general reduction algorithm based on cycle averaging and surgery. The same algorithm, when applied to stochastic networks, allow...

متن کامل

ذخیره در منابع من


  با ذخیره ی این منبع در منابع من، دسترسی به آن را برای استفاده های بعدی آسان تر کنید

برای دانلود متن کامل این مقاله و بیش از 32 میلیون مقاله دیگر ابتدا ثبت نام کنید

ثبت نام

اگر عضو سایت هستید لطفا وارد حساب کاربری خود شوید

عنوان ژورنال:

دوره   شماره 

صفحات  -

تاریخ انتشار 2010